How to use Bash script to loop through two files

Question

I have a file (file_in.txt) containing these names:

aphid_splitseq.1.fasta.annot.xml
aphid_splitseq.2.fasta.annot.xml
aphid_splitseq.3.fasta.ann         


        

Answer 1

As long as both your lists are just repetitions of the same kind of name with successive numbers, you shouldn't iterate over files at all. Instead, just count a variable and use that in whatever command you want executed at each step. Example:

COUNT=1
while [ $COUNT -lt 5 ]; do
  mv inputfile$COUNT outputfile$COUNT
  let COUNT++
done